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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ), 'gf_id' => 'HOM05D001055', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001055' ), 'data_identifier' => 'HOM05D001055', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001055', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p04520' => 'bna', 'A02p04540' => 'bna', 'A05p35370' => 'bna', 'A08p01220' => 'bna', 'A09p65660' => 'bna', 'A10p21610' => 'bna', 'A10p21620' => 'bna', 'Aa31LG10G1300' => 'aar', 'Aa31LG11G11720' => 'aar', 'Aa31LG11G11730' => 'aar', 'Aa31LG8G1280' => 'aar', 'Aa31sc17G50' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.342' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4130' => 'aag', 'Actinidia03919' => 'ach', 'Actinidia05714' => 'ach', 'Actinidia26020' => 'ach', 'Actinidia30229' => 'ach', 'Actinidia39650' => 'ach', 'Ah.06g189160' => 'amhyb', 'Ah.08g216950' => 'amhyb', 'Ah.14g084880' => 'amhyb', 'AL1G19390' => 'aly', 'AL1G62830' => 'aly', 'AL3G26290' => 'aly', 'AL6G28940' => 'aly', 'AL6G28960' => 'aly', 'Aqoxy1G00509' => 'aox', 'Aqoxy1G00510' => 'aox', 'Aqoxy2G03280' => 'aox', 'Aqoxy7G01027' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3CP2KK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4HF8TC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85DRRL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.875LJI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A6CNFB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EV9M4R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HD8J2L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ISEY34' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J37FSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L59R0S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MF0PDN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N2RSTJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SM0R5P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T194AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XD696N' => 'arhy', 'AT1G08960' => 'ath', 'AT1G54115' => 'ath', 'AT3G14070' => 'ath', 'AT5G17850' => 'ath', 'AT5G17860' => 'ath', 'ATR0598G106' => 'atr', 'ATR0697G149' => 'atr', 'Atru.chr1.4008' => 'acertr', 'Atru.chr1.4009' => 'acertr', 'Atru.chr1.4010' => 'acertr', 'Atru.chr1.4013' => 'acertr', 'Atru.chr1.4026' => 'acertr', 'Atru.chr1.4032' => 'acertr', 'Atru.chr2.1519' => 'acertr', 'Atru.chr2.1520' => 'acertr', 'Atru.chr2.461' => 'acertr', 'Atru.chr7.1720' => 'acertr', 'AUR62000892' => 'cqu', 'AUR62001463' => 'cqu', 'AUR62005081' => 'cqu', 'AUR62009905' => 'cqu', 'AUR62025258' => 'cqu', 'AUR62025259' => 'cqu', 'AUR62028263' => 'cqu', 'AUR62028264' => 'cqu', 'BcaB04g17027' => 'bca', 'BcaB04g17028' => 'bca', 'BcaB05g23283' => 'bca', 'BcaB05g23285' => 'bca', 'BcaB08g36736' => 'bca', 'BcaB08g36737' => 'bca', 'BcaC01g01434' => 'bca', 'BcaC03g13548' => 'bca', 'BcaC03g13549' => 'bca', 'BcaC03g13553' => 'bca', 'BcaC03g15038' => 'bca', 'BcaC03g15039' => 'bca', 'BcaC04g18754' => 'bca', 'BcaC04g18755' => 'bca', 'BcaC05g29126' => 'bca', 'BcaC07g41914' => 'bca', 'BolC2t06846H' => 'bol', 'BolC2t06847H' => 'bol', 'BolC2t07880H' => 'bol', 'BolC2t08661H' => 'bol', 'BolC3t21518H' => 'bol', 'BolC5t34033H' => 'bol', 'BolC8t52501H' => 'bol', 'BolC9t58767H' => 'bol', 'BolC9t58768H' => 'bol', 'BraA02t05413Z' => 'bra', 'BraA02t05415Z' => 'bra', 'BraA05t22347Z' => 'bra', 'BraA08t32173Z' => 'bra', 'BraA09t41910Z' => 'bra', 'BraA10t44223Z' => 'bra', 'BraA10t44224Z' => 'bra', 'C02p09390' => 'bna', 'C02p09420' => 'bna', 'C02p25860' => 'bna', 'C03p91980' => 'bna', 'C05p53560' => 'bna', 'C08p49740' => 'bna', 'C09p59260' => 'bna', 'C09p59270' => 'bna', 'CAN.G1132.11' => 'can', 'CAN.G1270.5' => 'can', 'CAN.G1870.5' => 'can', 'CAN.G1870.6' => 'can', 'CAN.G595.4' => 'can', 'CAN.G954.15' => 'can', 'CANSAT54G0947' => 'cansat', 'CANSAT56G1664' => 'cansat', 'CANSAT78G1312' => 'cansat', 'CANSAT78G1674' => 'cansat', 'CARHR008860' => 'chi', 'CARHR044460' => 'chi', 'CARHR088920' => 'chi', 'CARHR195310' => 'chi', 'CARHR195320' => 'chi', 'Carub.0001s0827' => 'cru', 'Carub.0001s4335' => 'cru', 'Carub.0003s1367' => 'cru', 'Carub.0006s1608' => 'cru', 'Carub.0006s1609' => 'cru', 'Ca_08314_v3' => 'car', 'Ca_08315_v3' => 'car', 'Ca_09366_v3' => 'car', 'Ca_23396_v3' => 'car', 'Ca_25678_v3' => 'car', 'CBR_g37505' => 'cbr', 'CBR_g45377' => 'cbr', 'Cc00_g19090' => 'ccan', 'Cc02_g33650' => 'ccan', 'Cc06_g12270' => 'ccan', 'Cc06_g21490' => 'ccan', 'Cc08_g03770' => 'ccan', 'CDE05G2286' => 'cde', 'CDE11G0929' => 'cde', 'Cfa002977' => 'cfa', 'Cfa006559' => 'cfa', 'Cfa017712' => 'cfa', 'Cfa017713' => 'cfa', 'Cfa026694' => 'cfa', 'Ciclev10000843m.g' => 'ccl', 'Ciclev10019408m.g' => 'ccl', 'Ciclev10019448m.g' => 'ccl', 'Ciclev10025116m.g' => 'ccl', 'CiPaw.03G205000' => 'cil', 'CiPaw.07G015700' => 'cil', 'CiPaw.09G166500' => 'cil', 'CiPaw.09G166600' => 'cil', 'ClCG03G015000' => 'cla', 'ClCG03G016870' => 'cla', 'ClCG10G015870' => 'cla', 'COL.COLO4_13503' => 'col', 'COL.COLO4_18084' => 'col', 'COL.COLO4_20558' => 'col', 'COL.COLO4_28646' => 'col', 'COL.COLO4_28648' => 'col', 'COL.COLO4_30737' => 'col', 'Cpa.g.c37389' => 'cpa', 'Cpa.g.sc161.37' => 'cpa', 'Cpa.g.sc25.133' => 'cpa', 'Cpa.g.sc48.27' => 'cpa', 'Cpa.g.sc73.1' => 'cpa', 'Cre14.g625300' => 'cre', 'Cre16.g683595' => 'cre', 'CsaV3_1G039070' => 'csa', 'CsaV3_1G041140' => 'csa', 'CsaV3_3G040600' => 'csa', 'CSS0002251' => 'camsi', 'CSS0006324' => 'camsi', 'CSS0007913' => 'camsi', 'CSS0015661' => 'camsi', 'CSS0018394' => 'camsi', 'CSS0020087' => 'camsi', 'CSS0024397' => 'camsi', 'CSS0026495' => 'camsi', 'CSS0031507' => 'camsi', 'CSS0035143' => 'camsi', 'CSS0049964' => 'camsi', 'DCAR_010497' => 'dca', 'DCAR_011941' => 'dca', 'DCAR_013488' => 'dca', 'DCAR_026419' => 'dca', 'DCAR_029429' => 'dca', 'Dinv13197' => 'din', 'Dinv13790' => 'din', 'Dinv25042' => 'din', 'Dinv25548' => 'din', 'Dinv32126' => 'din', 'Dinv37858' => 'din', 'Dinv40268' => 'din', 'Dinv42403' => 'din', 'Duzib128G0202' => 'dzi', 'Duzib160G0542' => 'dzi', 'Duzib177G0123' => 'dzi', 'Duzib177G0134' => 'dzi', 'Duzib177G0672' => 'dzi', 'Duzib235G0773' => 'dzi', 'ECA236G1630' => 'eca', 'ECA238G4219' => 'eca', 'ECA238G4658' => 'eca', 'ECA247G2846' => 'eca', 'EL10Ac4g09332' => 'bvu', 'EL10Ac7g16426' => 'bvu', 'EL10Ac8g19047' => 'bvu', 'Eucgr.A02141' => 'egr', 'Eucgr.A02142' => 'egr', 'Eucgr.C00794' => 'egr', 'Eucgr.F04355' => 'egr', 'Eucgr.L00497' => 'egr', 'Eucgr.L03542' => 'egr', 'FAN02G0110' => 'fan', 'FAN02G2356' => 'fan', 'FAN05G2901' => 'fan', 'FAN05G3280' => 'fan', 'FAN05G5400' => 'fan', 'FAN05G5610' => 'fan', 'FAN09G1406' => 'fan', 'FAN09G2588' => 'fan', 'FAN12G2834' => 'fan', 'FAN14G0326' => 'fan', 'FAN14G0656' => 'fan', 'FAN14G5710' => 'fan', 'FAN15G2486' => 'fan', 'FAN19G0547' => 'fan', 'FAN20G1937' => 'fan', 'FAN22G0488' => 'fan', 'FAN23G0085' => 'fan', 'FAN24G2427' => 'fan', 'FAN26G1237' => 'fan', 'FAN26G1744' => 'fan', 'FAN28G1910' => 'fan', 'FvH4_1g08880' => 'fve', 'FvH4_2g05640' => 'fve', 'FvH4_2g05650' => 'fve', 'FvH4_4g12810' => 'fve', 'FvH4_6g03400' => 'fve', 'FvH4_6g05530' => 'fve', 'Glyma.03G239500' => 'gma', 'Glyma.04G210900' => 'gma', 'Glyma.06G155200' => 'gma', 'Glyma.07G040300' => 'gma', 'Glyma.16G008950' => 'gma', 'Glyma.16G036000' => 'gma', 'Glyma.19G066700' => 'gma', 'Glyma.19G117100' => 'gma', 'Glyma.19G117200' => 'gma', 'Gohir.A05G139600' => 'ghi', 'Gohir.A06G144200' => 'ghi', 'Gohir.A08G219555' => 'ghi', 'Gohir.A08G220000' => 'ghi', 'Gohir.A11G228300' => 'ghi', 'Gohir.A11G263800' => 'ghi', 'Gohir.A13G163600' => 'ghi', 'Gohir.A13G190000' => 'ghi', 'Gohir.D05G141800' => 'ghi', 'Gohir.D06G149900' => 'ghi', 'Gohir.D11G240800' => 'ghi', 'Gohir.D11G273900' => 'ghi', 'Gohir.D13G166500' => 'ghi', 'Gohir.D13G196340' => 'ghi', 'Gorai.004G252100' => 'gra', 'Gorai.007G254300' => 'gra', 'Gorai.007G254400' => 'gra', 'Gorai.007G295500' => 'gra', 'Gorai.009G145900' => 'gra', 'Gorai.010G174900' => 'gra', 'Gorai.013G196000' => 'gra', 'Gorai.013G223600' => 'gra', 'GSVIVG01000027001' => 'vvi', 'GSVIVG01015063001' => 'vvi', 'GSVIVG01016735001' => 'vvi', 'GSVIVG01029961001' => 'vvi', 'GSVIVG01037507001' => 'vvi', 'HanXRQChr01g0027431' => 'han', 'HanXRQChr04g0094731' => 'han', 'HanXRQChr04g0125991' => 'han', 'HanXRQChr05g0152171' => 'han', 'HanXRQChr12g0354401' => 'han', 'HanXRQChr13g0398921' => 'han', 'HanXRQChr14g0446401' => 'han', 'HanXRQChr14g0453651' => 'han', 'Haze_20404' => 'cav', 'Haze_20406' => 'cav', 'Haze_26024' => 'cav', 'Hma1.2p1_0106F.1_g051200' => 'hma', 'Hma1.2p1_0179F.1_g079460' => 'hma', 'Hma1.2p1_0218F.1_g092500' => 'hma', 'Hma1.2p1_0526F.1_g172900' => 'hma', 'Hma1.2p1_0686F.1_g203350' => 'hma', 'Hma1.2p1_1362F.1_g278240' => 'hma', 'Hma1.2p1_2493F.1_g323273' => 'hma', 'HPP92_006130' => 'vpl', 'HPP92_012144' => 'vpl', 'HPP92_013176' => 'vpl', 'HPP92_013281' => 'vpl', 'HPP92_016600' => 'vpl', 'HPP92_017657' => 'vpl', 'HPP92_019528' => 'vpl', 'HPP92_025574' => 'vpl', 'HPP92_025587' => 'vpl', 'Lalb_Chr01g0013661' => 'lal', 'Lalb_Chr02g0157381' => 'lal', 'Lalb_Chr11g0074251' => 'lal', 'Lalb_Chr14g0364841' => 'lal', 'Lalb_Chr15g0077161' => 'lal', 'Lalb_Chr22g0358641' => 'lal', 'Lalb_Chr22g0358671' => 'lal', 'Lalb_Chr25g0281571' => 'lal', 'Lj1g0007844' => 'lja', 'Lj1g0015621' => 'lja', 'Lj1g0018384' => 'lja', 'Lj1P1072T17' => 'lonja', 'Lj2g0009426' => 'lja', 'Lj2g0011028' => 'lja', 'Lj3g0018698' => 'lja', 'Lj4P914T15' => 'lonja', 'Lj5C35T4' => 'lonja', 'Lj9A684G47' => 'lonja', 'Lsat_1_v5_gn_1_38401' => 'lsa', 'Lsat_1_v5_gn_2_103720' => 'lsa', 'Lsat_1_v5_gn_2_64181' => 'lsa', 'Lsat_1_v5_gn_5_140220' => 'lsa', 'Lsat_1_v5_gn_6_31460' => 'lsa', 'Lsat_1_v5_gn_6_31481' => 'lsa', 'Lsat_1_v5_gn_8_85581' => 'lsa', 'Manes.03G041200' => 'mes', 'Manes.04G146200' => 'mes', 'Manes.08G122500' => 'mes', 'Manes.08G152900' => 'mes', 'Manes.08G153000' => 'mes', 'Manes.09G136600' => 'mes', 'Manes.09G164900' => 'mes', 'Manes.11G018600' => 'mes', 'Manes.16G094502' => 'mes', 'Mapoly0151s0010' => 'mpo', 'MBI11_g44568_MAGBIO' => 'mbi', 'MBI11_g44569_MAGBIO' => 'mbi', 'MBI11_g45712_MAGBIO' => 'mbi', 'MBI11_g45713_MAGBIO' => 'mbi', 'MBI13_g35419_MAGBIO' => 'mbi', 'MBI17_g29945_MAGBIO' => 'mbi', 'MCO03G580' => 'mco', 'MCO05G716' => 'mco', 'MCO13G257' => 'mco', 'MCO15G624' => 'mco', 'MD02G1094200' => 'mdo', 'MD04G1207600' => 'mdo', 'MD12G1011500' => 'mdo', 'MD12G1011800' => 'mdo', 'MD12G1221900' => 'mdo', 'MD14G1008300' => 'mdo', 'MD14G1008700' => 'mdo', 'MD15G1219100' => 'mdo', 'Medtr5g099160' => 'mtr', 'Medtr6g027570' => 'mtr', 'Medtr6g027580' => 'mtr', 'Medtr7g086690' => 'mtr', 'Medtr7g113730' => 'mtr', 'Medtr8g021180' => 'mtr', 'MELO3C009791.2' => 'cme', 'MELO3C015334.2' => 'cme', 'MELO3C015529.2' => 'cme', 'Migut.I01089' => 'egut', 'Migut.L01572' => 'egut', 'Migut.N01950' => 'egut', 'MSTRG.10504' => 'ama', 'MSTRG.10941' => 'ama', 'MSTRG.19736' => 'ama', 'MSTRG.22541' => 'ama', 'MSTRG.5109' => 'ama', 'Nitab4.5_0000022g0430' => 'nta', 'Nitab4.5_0000343g0280' => 'nta', 'Nitab4.5_0001345g0040' => 'nta', 'Nitab4.5_0001643g0040' => 'nta', 'Nitab4.5_0002031g0010' => 'nta', 'Nitab4.5_0002719g0070' => 'nta', 'Nitab4.5_0003308g0070' => 'nta', 'Nitab4.5_0005404g0030' => 'nta', 'Nitab4.5_0005985g0050' => 'nta', 'Nitab4.5_0011404g0020' => 'nta', 'Nn1g08150' => 'nnu', 'Nn2g10523' => 'nnu', 'Nn2g14560' => 'nnu', 'Nn2g14561' => 'nnu', 'Nn3g21908' => 'nnu', 'Nn4g26206' => 'nnu', 'Nn6g32377' => 'nnu', 'Nn6g32430' => 'nnu', 'Nn8g38615' => 'nnu', 'Oeu000280.1' => 'oeu', 'Oeu023742.1' => 'oeu', 'Oeu027744.2' => 'oeu', 'Oeu043641.1' => 'oeu', 'Oeu052785.1' => 'oeu', 'Oeu057872.1' => 'oeu', 'Oeu058830.1' => 'oeu', 'Os03g0180000' => 'osa', 'Os03g0656500' => 'osa', 'Os07g0476401' => 'osa', 'Os10g0436900' => 'osa', 'Os11g0107266' => 'osa', 'Os11g0148000' => 'osa', 'Os12g0624200' => 'osa', 'Peaxi162Scf00037g00126' => 'pax', 'Peaxi162Scf00348g00062' => 'pax', 'Peaxi162Scf00457g00051' => 'pax', 'Peaxi162Scf01896g00001' => 'pax', 'PGR042G2103' => 'pgr', 'PGR042G3887' => 'pgr', 'PGR083G1012' => 'pgr', 'PGR142G3704' => 'pgr', 'PGSC0003DMG400011226' => 'stu', 'PGSC0003DMG400021132' => 'stu', 'PGSC0003DMG400024286' => 'stu', 'PGSC0003DMG400027885' => 'stu', 'PGSC0003DMG400028607' => 'stu', 'Phvul.001G105400' => 'pvu', 'Phvul.001G105500' => 'pvu', 'Phvul.004G049800' => 'pvu', 'Phvul.006G093300' => 'pvu', 'Phvul.010G128500' => 'pvu', 'Potri.001G167200' => 'ptr', 'Potri.003G066900' => 'ptr', 'Potri.013G025100' => 'ptr', 'Potri.013G065800' => 'ptr', 'Potri.013G065900' => 'ptr', 'Potri.019G040200' => 'ptr', 'Potri.019G040301' => 'ptr', 'Pp3c19_21520' => 'ppa', 'Pp3c3_880' => 'ppa', 'Pp3c3_884' => 'ppa', 'Pp3c9_2210' => 'ppa', 'PRCOL_00001311' => 'pco', 'Prupe.6G328600' => 'ppe', 'Prupe.7G014900' => 'ppe', 'Prupe.7G015000' => 'ppe', 'Prupe.7G196800' => 'ppe', 'Psat1g089600' => 'psa', 'Psat3g010440' => 'psa', 'Psat3g086600' => 'psa', 'Psat4g168400' => 'psa', 'PSO063G0834' => 'pso', 'PSO063G2614' => 'pso', 'PSO104G0086' => 'pso', 'PSO302G0049' => 'pso', 'PSO339G2466' => 'pso', 'PSO339G2989' => 'pso', 'PSO421G0741' => 'pso', 'QL03p005172' => 'qlo', 'QL03p006143' => 'qlo', 'QL05p003986' => 'qlo', 'QL07p017443' => 'qlo', 'QL07p017492' => 'qlo', 'QL11p001041' => 'qlo', 'RcHm_v2.0_Chr2g0095341' => 'rch', 'RcHm_v2.0_Chr3g0454301' => 'rch', 'RcHm_v2.0_Chr3g0496041' => 'rch', 'RcHm_v2.0_Chr3g0496071' => 'rch', 'Rhsim03G0049400' => 'rsi', 'Rhsim05G0006700' => 'rsi', 'Rhsim07G0181700' => 'rsi', 'Rhsim12G0210600' => 'rsi', 'Rhsim12G0211000' => 'rsi', 'Rhsim13G0200200' => 'rsi', 'Sabra01G0126100' => 'sbr', 'Sabra01G0126200' => 'sbr', 'Sabra03G0039500' => 'sbr', 'Sabra13G0026300' => 'sbr', 'Sabra13G0057500' => 'sbr', 'Sabra13G0057600' => 'sbr', 'Sabra19G0050500' => 'sbr', 'SalBow3G0628' => 'sbo', 'SalBow5G3149' => 'sbo', 'SalBow5G4126' => 'sbo', 'SalBow6G0022' => 'sbo', 'SalBow6G1904' => 'sbo', 'SalBow6G3819' => 'sbo', 'SalBow6G3911' => 'sbo', 'Sc08g0008930' => 'sci', 'Sc09g0003270' => 'sci', 'Sc12g0010680' => 'sci', 'Sc14g0000520' => 'sci', 'Sed0010688' => 'sed', 'Sed0012937' => 'sed', 'Sed0015209' => 'sed', 'Sed0023700' => 'sed', 'Sed0024352' => 'sed', 'SEGI_24981' => 'sgi', 'SGA_v2.0_scaffold21G09505' => 'sas', 'SGA_v2.0_scaffold66G22375' => 'sas', 'SGA_v2.0_scaffold71G23878' => 'sas', 'SGA_v2.0_scaffold81G26085' => 'sas', 'SHI07108' => 'shi', 'SMO117G0189' => 'smo', 'SMO119G0232' => 'smo', 'SMO361G0368' => 'smo', 'Solyc01g098800.4' => 'sly', 'Solyc02g069710.4' => 'sly', 'Solyc07g006370.1' => 'sly', 'Solyc07g042000.4' => 'sly', 'Solyc09g072690.1' => 'sly', 'Sopen01g042340' => 'spe', 'Sopen02g014000' => 'spe', 'Sopen02g018830' => 'spe', 'Sopen07g002460' => 'spe', 'Sopen07g021570' => 'spe', 'Sopen09g028500' => 'spe', 'Sp1g07570' => 'spa', 'Sp1g40560' => 'spa', 'Sp3g12320' => 'spa', 'Sp6g26390' => 'spa', 'Sp6g26400' => 'spa', 'TAR362G0089' => 'tar', 'TAR365G0150' => 'tar', 'TAR623G0573' => 'tar', 'TAR624G0063' => 'tar', 'TAR626G0032' => 'tar', 'TAR626G1571' => 'tar', 'TAR636G1003' => 'tar', 'THA.LOC104802885' => 'tha', 'THA.LOC104810371' => 'tha', 'THA.LOC104820793' => 'tha', 'THA.LOC104820794' => 'tha', 'THA.LOC104820960' => 'tha', 'Thecc.05G241600' => 'tca', 'Thecc.05G241700' => 'tca', 'Thecc.05G306200' => 'tca', 'Thecc.06G122500' => 'tca', 'Thecc.09G075300' => 'tca', 'Thhalv10007271m.g' => 'esa', 'Thhalv10012398m.g' => 'esa', 'Thhalv10013163m.g' => 'esa', 'Thhalv10016097m.g' => 'esa', 'TPR.G16734' => 'tpr', 'TPR.G33215' => 'tpr', 'TPR.G34791' => 'tpr', 'TPR.G35056' => 'tpr', 'TPR.G35638' => 'tpr', 'TWI14G1166' => 'twi', 'TWI32G1043' => 'twi', 'TWI56G1063' => 'twi', 'TWI59G0353' => 'twi', 'TWI60G0444' => 'twi', 'TWI60G0620' => 'twi', 'unitig_21.g20662' => 'ugi', 'unitig_26.g9978' => 'ugi', 'unitig_699.g19270' => 'ugi', 'vmacro17130' => 'vma', 'vmacro22031' => 'vma', 'vmacro23129' => 'vma', 'VMungo0331G1106' => 'vmu', 'VMungo0464G1230' => 'vmu', 'VMungo0540G0843' => 'vmu', 'VMungo0540G2236' => 'vmu', 'VMungo1383G0215' => 'vmu', 'VMungo1383G1811' => 'vmu', 'Zm00001eb032330' => 'zma', 'Zm00001eb047550' => 'zma', 'Zm00001eb052700' => 'zma', 'Zm00001eb126650' => 'zma', 'Zm00001eb140750' => 'zma', 'Zm00001eb218250' => 'zma', 'Zm00001eb334330' => 'zma', 'Zm00001eb349340' => 'zma', 'Zm00001eb361440' => 'zma', 'Zm00001eb406420' => 'zma' ) $gf_id = 'HOM05D001055' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001055' ) $data_identifier = 'HOM05D001055' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 5, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 10, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 9, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 2, 'ccan' => (int) 5, 'cde' => (int) 2, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 5, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 5, 'din' => (int) 8, 'dzi' => (int) 6, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 6, 'fan' => (int) 21, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 5, 'han' => (int) 8, 'cav' => (int) 3, 'hma' => (int) 7, 'vpl' => (int) 9, 'lal' => (int) 8, 'lja' => (int) 6, 'lonja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 9, 'mpo' => (int) 1, 'mbi' => (int) 6, 'mco' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 9, 'oeu' => (int) 7, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 7, 'sbo' => (int) 7, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 6, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 3, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb406420' $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